MolNFT v1 · #24890 · protein
Crystal structure of catalytic domain of pseudouridine synthase rlud from escherichia COLI
1V9F · Ribosomal large subunit pseudouridine synthase D: “Crystal structure of catalytic domain of pseudouridine synthase rlud from escherichia COLI”. X-ray diffraction, 1 ligand (PO4), 1 pocket (best druggability 0.60). MolNFT v1 #24890…
- PDB
- 1V9F
- Type
- protein
- Length
- 250 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Ribosomal large subunit pseudouridine synthase D
- EC
- 4.2.1.70
- UniProt
- P33643
- Ligands
- PO4
- Pockets
- 1 · best druggability 0.60
Structure
x-ray diffraction · 1 distinct chain · 27% helix, 29% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Ribosomal large subunit pseudouridine synthase D (EC 4.2.1.70) | protein | 250 | 27% helix, 29% strand | P33643 |
Ligands and binding sites
- PO4 · Phosphate ion · ion · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
1 pocket found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 333 | 0.60 | 0.77 | 42 | PO4 |
Compared structures
- 1V9F · Crystal structure of catalytic domain of pseudouridine synthase RluD from Escherichia coli · the same entry in another collection · chain A against A, TM-score 1.00
- P33643 · AlphaFold monomer V2.0 prediction for ribosomal large subunit pseudouridine synthase D… · a predicted model of the same protein · chain A against A, TM-score 0.97
Analyse
- Open in the research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides and crosslinks on the 3D structure
- Every structure of UniProt P33643
- Elsewhere: RCSB PDB 1V9F · PDBe 1V9F · UniProt P33643
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